SMTL ID : 8eg6.2 (1 other biounit)

huCaspase-6 in complex with inhibitor 2a

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.82 Å

Oligo State

hetero-2-2-mer

Ligands

2 x US9: (3R)-1-(ethanesulfonyl)-N-[4-(trifluoromethoxy)phenyl]piperidine-3-carboxamide(Covalent)

US9.1: 16 residues within 4Å: Chain A: R.35, R.36, G.37, T.38, D.41, Q.132, C.134, H.139 Chain B: Y.25, S.26, H.27, R.28, G.33, S.34, C.72, A.77 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.25, B:R.28 Hydrogen bonds: B:S.26, B:H.27 Halogen bonds: B:R.28 Water bridges: A:R.35, A:Q.132 US9.6: 17 residues within 4Å: Chain C: R.35, R.36, G.37, T.38, D.41, Q.132, C.134, H.139 Chain D: Y.25, S.26, H.27, R.28, G.33, S.34, F.71, C.72, A.77 8 PLIP interactions: 6 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:Y.25, D:Y.25, D:R.28 Hydrogen bonds: D:S.26, D:R.28 Halogen bonds: D:R.28 Water bridges: C:T.38, C:Q.132

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 11 residues within 4Å: Chain A: G.116, L.122, V.123, G.124, K.125, K.127 Chain B: P.9, A.10, A.12, D.13, F.14 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:G.116, A:G.124, A:K.125, A:K.127, B:A.10, B:D.13 EDO.3: 6 residues within 4Å: Chain A: D.140 Chain B: V.20, A.21, Y.24, Q.82, V.83 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.21, B:V.83 EDO.5: 3 residues within 4Å: Chain C: F.27, K.63, Y.101 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.63 Water bridges: C:Y.101 EDO.7: 10 residues within 4Å: Chain C: G.116, L.122, V.123, G.124, K.125, K.127 Chain D: P.9, A.10, A.12, D.13 7 PLIP interactions: 4 interactions with chain C, 3 interactions with chain D Hydrogen bonds: C:G.116, C:G.124, C:K.125, C:K.127, D:A.10, D:D.13, D:D.13 EDO.8: 4 residues within 4Å: Chain C: P.142 Chain D: I.78, G.79, K.80 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:K.80 Water bridges: D:R.68

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 4 residues within 4Å: Chain C: D.140 Chain D: V.20, Q.82, V.83 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Van Horn, K.S. et al., Engaging a Non-catalytic Cysteine Residue Drives Potent and Selective Inhibition of Caspase-6. J.Am.Chem.Soc. (2023)

Release Date

2023-05-10

Peptides

Caspase-6 subunit p18: AC
Caspase-6 subunit p11: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

C
G

B
D

D
H

Caspase-6 subunit p18

Caspase-6 subunit p11

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